PDB Chemical Component GTD

The following tables include covalent bond distance, bond angle and torsion angle values for the experimental model and ideal geometries stored in the definition for this chemical component.

Bond Distances for GTD

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
N1 CA1 1.526 1.469
N1 HN11 1.020 1.010
N1 HN12 1.020 1.009
CA1 C1 1.518 1.507
CA1 CB1 1.556 1.531
CA1 HA1 1.115 1.090
C1 O11 1.225 1.208
C1 O12 1.352 1.343
O12 HO1 0.951 0.967
CB1 CG1 1.524 1.530
CB1 HB11 1.114 1.090
CB1 HB12 1.115 1.090
CG1 CD1 1.514 1.507
CG1 HG11 1.116 1.091
CG1 HG12 1.115 1.090
CD1 OE1 1.278 1.213
CD1 N2 1.326 1.348
N2 CA2 1.476 1.465
N2 HN2 1.021 0.970
CA2 C2 1.535 1.507
CA2 CB2 1.512 1.530
CA2 HA2 1.114 1.090
C2 O2 1.235 1.212
C2 N3 1.353 1.348
CB2 SG2 1.766 1.814
CB2 HB21 1.116 1.090
CB2 HB22 1.115 1.090
SG2 C1' 1.776 1.814
N3 CA3 1.459 1.465
N3 HN3 1.020 0.970
CA3 C3 1.522 1.507
CA3 HA31 1.115 1.089
CA3 HA32 1.116 1.091
C3 O31 1.227 1.209
C3 O32 1.334 1.343
O32 HO3 0.949 0.967
C1' C2' 1.506 1.499
C1' C6' 1.506 1.499
C1' H1' 1.115 1.090
C2' N2' 1.449 1.481
C2' C3' 1.370 1.298
N2' O21 1.242 1.219
N2' O22 1.255 1.217
C3' C4' 1.387 1.499
C3' H3' 1.103 1.080
C4' N4' 1.465 1.466
C4' C5' 1.388 1.499
C4' H4' 1.114 1.090
N4' O41 1.254 1.218
N4' O42 1.244 1.218
C5' C6' 1.381 1.299
C5' H5' 1.103 1.080
C6' N6' 1.427 1.480
N6' O61 1.240 1.218
N6' O62 1.223 1.218

Bond Angles for GTD

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
CA1 N1 HN11 107.2 106.6
CA1 N1 HN12 113.0 106.7
N1 CA1 C1 107.2 109.5
N1 CA1 CB1 109.1 109.4
N1 CA1 HA1 112.5 109.5
HN11 N1 HN12 113.1 106.7
C1 CA1 CB1 112.9 109.5
C1 CA1 HA1 108.6 109.4
CA1 C1 O11 122.8 120.0
CA1 C1 O12 117.7 120.0
CB1 CA1 HA1 106.7 109.4
CA1 CB1 CG1 109.6 109.5
CA1 CB1 HB11 112.2 109.4
CA1 CB1 HB12 112.2 109.5
O11 C1 O12 119.4 120.0
C1 O12 HO1 117.7 120.0
CG1 CB1 HB11 112.2 109.5
CG1 CB1 HB12 112.1 109.4
CB1 CG1 CD1 113.2 109.5
CB1 CG1 HG11 110.9 109.5
CB1 CG1 HG12 110.9 109.4
HB11 CB1 HB12 98.3 109.5
CD1 CG1 HG11 110.8 109.5
CD1 CG1 HG12 110.9 109.5
CG1 CD1 OE1 123.7 120.0
CG1 CD1 N2 114.5 120.0
HG11 CG1 HG12 99.4 109.4
OE1 CD1 N2 121.8 120.0
CD1 N2 CA2 124.3 120.0
CD1 N2 HN2 112.1 120.0
CA2 N2 HN2 123.7 120.0
N2 CA2 C2 106.2 109.5
N2 CA2 CB2 111.2 109.4
N2 CA2 HA2 110.8 109.5
C2 CA2 CB2 110.4 109.5
C2 CA2 HA2 111.6 109.5
CA2 C2 O2 119.5 120.0
CA2 C2 N3 116.6 120.0
CB2 CA2 HA2 106.7 109.4
CA2 CB2 SG2 115.0 109.5
CA2 CB2 HB21 110.2 109.5
CA2 CB2 HB22 110.3 109.5
O2 C2 N3 123.9 120.0
C2 N3 CA3 118.9 120.0
C2 N3 HN3 116.9 120.0
SG2 CB2 HB21 110.2 109.5
SG2 CB2 HB22 110.2 109.4
CB2 SG2 C1' 102.9 100.0
HB21 CB2 HB22 100.0 109.5
SG2 C1' C2' 105.0 109.1
SG2 C1' C6' 105.0 109.2
SG2 C1' H1' 114.8 109.2
CA3 N3 HN3 124.2 120.0
N3 CA3 C3 112.8 109.5
N3 CA3 HA31 111.0 109.5
N3 CA3 HA32 111.0 109.5
C3 CA3 HA31 111.0 109.5
C3 CA3 HA32 111.0 109.4
CA3 C3 O31 120.9 120.0
CA3 C3 O32 117.9 120.0
HA31 CA3 HA32 99.3 109.4
O31 C3 O32 121.2 120.0
C3 O32 HO3 117.9 120.0
C2' C1' C6' 108.6 111.2
C2' C1' H1' 111.5 109.0
C1' C2' N2' 122.0 118.6
C1' C2' C3' 124.9 122.9
C6' C1' H1' 111.5 109.1
C1' C6' C5' 123.6 122.8
C1' C6' N6' 111.2 118.6
N2' C2' C3' 113.1 118.5
C2' N2' O21 117.5 120.0
C2' N2' O22 116.3 120.0
C2' C3' C4' 117.8 122.8
C2' C3' H3' 120.5 118.6
O21 N2' O22 126.1 120.0
C4' C3' H3' 121.7 118.6
C3' C4' N4' 117.5 109.1
C3' C4' C5' 123.5 111.2
C3' C4' H4' 82.8 109.1
N4' C4' C5' 118.8 109.1
N4' C4' H4' 122.5 109.1
C4' N4' O41 119.6 120.0
C4' N4' O42 122.7 120.0
C5' C4' H4' 72.2 109.1
C4' C5' C6' 118.8 122.8
C4' C5' H5' 120.8 118.6
O41 N4' O42 117.6 120.1
C6' C5' H5' 120.3 118.6
C5' C6' N6' 124.9 118.6
C6' N6' O61 116.1 120.0
C6' N6' O62 121.7 120.0
O61 N6' O62 122.2 120.0

Torsion Angles for GTD

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
HN11 N1 CA1 HN12 125.3 246.3
C1 CA1 N1 CB1 122.5 120.0
C1 CA1 N1 HA1 240.7 240.0
N1 CA1 C1 O11 156.3 340.0
N1 CA1 C1 O12 338.3 160.1
CB1 CA1 N1 HA1 118.2 120.0
N1 CA1 CB1 CG1 190.8 295.0
N1 CA1 CB1 HB11 316.0 55.0
N1 CA1 CB1 HB12 65.6 175.0
CA1 N1 HN11 HN12 234.8 113.7
HN11 N1 CA1 C1 180.0 306.2
HN11 N1 CA1 CB1 57.5 186.2
HN11 N1 CA1 HA1 299.3 66.3
CA1 N1 HN12 HN11 122.0 246.3
HN12 N1 CA1 C1 54.7 60.0
HN12 N1 CA1 CB1 292.2 300.0
HN12 N1 CA1 HA1 174.0 180.0
C1 CA1 N1 HN11 180.0 306.2
C1 CA1 N1 HN12 54.7 60.0
N1 CA1 C1 CB1 239.8 240.0
N1 CA1 C1 HA1 121.7 120.1
CB1 CA1 C1 HA1 241.9 240.1
C1 CA1 CB1 CG1 71.7 175.0
C1 CA1 CB1 HB11 197.0 295.0
C1 CA1 CB1 HB12 306.5 55.0
O11 C1 CA1 O12 178.0 179.9
CA1 C1 O12 HO1 180.0 180.0
CB1 CA1 N1 HN11 57.5 186.2
CB1 CA1 N1 HN12 292.2 300.0
N1 CA1 CB1 C1 119.1 120.0
N1 CA1 CB1 HA1 238.3 240.0
C1 CA1 CB1 HA1 119.2 119.9
CB1 CA1 C1 O11 276.5 100.0
CB1 CA1 C1 O12 98.5 280.1
CG1 CB1 CA1 HB11 234.7 240.0
CG1 CB1 CA1 HB12 125.2 120.0
CA1 CB1 CG1 CD1 165.3 180.0
CA1 CB1 CG1 HG11 290.6 300.0
CA1 CB1 CG1 HG12 40.0 60.0
HB11 CB1 CA1 HB12 250.5 240.0
HA1 CA1 N1 HN11 299.3 66.3
HA1 CA1 N1 HN12 174.0 180.0
N1 CA1 HA1 C1 241.5 239.9
N1 CA1 HA1 CB1 119.6 120.0
C1 CA1 HA1 CB1 238.1 240.0
HA1 CA1 C1 O11 34.5 219.9
HA1 CA1 C1 O12 216.5 40.0
HA1 CA1 CB1 CG1 312.5 55.0
HA1 CA1 CB1 HB11 77.8 175.0
HA1 CA1 CB1 HB12 187.3 295.1
O11 C1 CA1 CB1 276.5 100.0
O11 C1 CA1 HA1 34.5 219.9
CA1 C1 O11 O12 182.0 180.1
O11 C1 O12 HO1 2.0 0.1
O12 C1 CA1 CB1 98.5 280.1
O12 C1 CA1 HA1 216.5 40.0
CA1 C1 O12 O11 178.1 179.9
CG1 CB1 CA1 HA1 312.5 55.0
CA1 CB1 CG1 HB11 125.3 120.0
CA1 CB1 CG1 HB12 234.8 240.0
HB11 CB1 CG1 HB12 109.5 120.0
CD1 CG1 CB1 HG11 234.7 240.0
CD1 CG1 CB1 HG12 125.3 120.0
CB1 CG1 CD1 OE1 336.4 360.0
CB1 CG1 CD1 N2 157.2 180.0
HG11 CG1 CB1 HG12 250.6 240.1
HB11 CB1 CA1 HA1 77.8 175.0
CA1 CB1 HB11 CG1 236.2 240.0
CA1 CB1 HB11 HB12 118.1 120.0
CG1 CB1 HB11 HB12 241.9 240.0
HB11 CB1 CG1 CD1 40.1 60.0
HB11 CB1 CG1 HG11 165.4 180.1
HB11 CB1 CG1 HG12 274.8 300.0
HB12 CB1 CA1 HA1 187.3 295.1
CA1 CB1 HB12 CG1 123.8 120.0
CA1 CB1 HB12 HB11 241.9 240.0
CG1 CB1 HB12 HB11 118.1 120.0
HB12 CB1 CG1 CD1 290.6 300.0
HB12 CB1 CG1 HG11 55.8 60.0
HB12 CB1 CG1 HG12 165.3 179.9
CD1 CG1 CB1 HB11 40.1 60.0
CD1 CG1 CB1 HB12 290.6 300.0
CB1 CG1 CD1 HG11 125.3 120.0
CB1 CG1 CD1 HG12 234.7 240.0
HG11 CG1 CD1 HG12 109.4 120.0
OE1 CD1 CG1 N2 179.2 180.0
CG1 CD1 N2 CA2 196.9 179.9
CG1 CD1 N2 HN2 16.9 0.0
HG11 CG1 CB1 HB11 165.4 180.1
HG11 CG1 CB1 HB12 55.8 60.0
CB1 CG1 HG11 CD1 233.4 240.0
CB1 CG1 HG11 HG12 116.7 119.9
CD1 CG1 HG11 HG12 243.3 240.0
HG11 CG1 CD1 OE1 211.1 240.0
HG11 CG1 CD1 N2 31.9 60.0
HG12 CG1 CB1 HB11 274.8 300.0
HG12 CG1 CB1 HB12 165.3 179.9
CB1 CG1 HG12 CD1 126.6 120.0
CB1 CG1 HG12 HG11 243.3 240.0
CD1 CG1 HG12 HG11 116.7 120.0
HG12 CG1 CD1 OE1 101.7 120.0
HG12 CG1 CD1 N2 282.5 300.0
OE1 CD1 CG1 HG11 211.1 240.0
OE1 CD1 CG1 HG12 101.7 120.0
CG1 CD1 OE1 N2 180.9 180.0
OE1 CD1 N2 CA2 17.7 359.9
OE1 CD1 N2 HN2 197.7 180.0
N2 CD1 CG1 HG11 31.9 60.0
N2 CD1 CG1 HG12 282.5 300.0
CG1 CD1 N2 OE1 179.2 180.0
CA2 N2 CD1 HN2 180.0 179.9
CD1 N2 CA2 C2 230.9 275.0
CD1 N2 CA2 CB2 110.8 155.0
CD1 N2 CA2 HA2 352.3 35.1
CD1 N2 CA2 HN2 180.0 180.1
C2 CA2 N2 CB2 120.1 120.0
C2 CA2 N2 HA2 238.6 239.9
N2 CA2 C2 O2 196.7 0.0
N2 CA2 C2 N3 17.9 180.0
CB2 CA2 N2 HA2 118.5 119.9
N2 CA2 CB2 SG2 303.8 300.0
N2 CA2 CB2 HB21 69.0 60.0
N2 CA2 CB2 HB22 178.5 180.1
CD1 N2 HN2 CA2 180.0 179.9
HN2 N2 CA2 C2 50.9 95.0
HN2 N2 CA2 CB2 290.8 334.9
HN2 N2 CA2 HA2 172.3 215.0
C2 CA2 N2 HN2 50.9 95.0
N2 CA2 C2 CB2 239.3 240.0
N2 CA2 C2 HA2 120.9 120.0
CB2 CA2 C2 HA2 241.5 240.0
C2 CA2 CB2 SG2 186.1 180.0
C2 CA2 CB2 HB21 311.4 300.0
C2 CA2 CB2 HB22 60.9 60.0
O2 C2 CA2 N3 178.8 180.0
CA2 C2 N3 CA3 181.4 180.0
CA2 C2 N3 HN3 1.3 0.0
CB2 CA2 N2 HN2 290.8 334.9
N2 CA2 CB2 C2 117.6 120.0
N2 CA2 CB2 HA2 239.1 240.0
C2 CA2 CB2 HA2 121.4 120.0
CB2 CA2 C2 O2 317.4 120.0
CB2 CA2 C2 N3 138.5 300.0
SG2 CB2 CA2 HB21 234.7 240.0
SG2 CB2 CA2 HB22 125.3 120.0
CA2 CB2 SG2 C1' 265.8 180.0
HB21 CB2 CA2 HB22 250.5 240.0
HA2 CA2 N2 HN2 172.3 215.0
N2 CA2 HA2 C2 241.8 239.9
N2 CA2 HA2 CB2 121.2 119.9
C2 CA2 HA2 CB2 239.4 240.0
HA2 CA2 C2 O2 75.8 240.0
HA2 CA2 C2 N3 257.0 60.0
HA2 CA2 CB2 SG2 64.7 60.0
HA2 CA2 CB2 HB21 190.0 180.0
HA2 CA2 CB2 HB22 299.4 300.0
O2 C2 CA2 CB2 317.4 120.0
O2 C2 CA2 HA2 75.8 240.0
CA2 C2 O2 N3 181.2 180.0
O2 C2 N3 CA3 2.6 360.0
O2 C2 N3 HN3 182.5 180.0
N3 C2 CA2 CB2 138.5 300.0
N3 C2 CA2 HA2 257.0 60.0
CA2 C2 N3 O2 178.8 180.0
CA3 N3 C2 HN3 180.0 180.0
C2 N3 CA3 C3 247.4 180.0
C2 N3 CA3 HA31 12.7 300.0
C2 N3 CA3 HA32 122.1 60.0
SG2 CB2 CA2 HA2 64.7 60.0
CA2 CB2 SG2 HB21 125.3 120.0
CA2 CB2 SG2 HB22 234.7 240.0
HB21 CB2 SG2 HB22 109.4 120.0
CB2 SG2 C1' C2' 254.1 296.7
CB2 SG2 C1' C6' 139.6 175.0
CB2 SG2 C1' H1' 16.8 55.8
HB21 CB2 CA2 HA2 190.0 180.0
CA2 CB2 HB21 SG2 232.1 240.0
CA2 CB2 HB21 HB22 116.1 120.0
SG2 CB2 HB21 HB22 244.0 240.0
HB21 CB2 SG2 C1' 140.5 60.0
HB22 CB2 CA2 HA2 299.4 300.0
CA2 CB2 HB22 SG2 128.0 120.0
CA2 CB2 HB22 HB21 243.9 240.0
SG2 CB2 HB22 HB21 116.0 120.0
HB22 CB2 SG2 C1' 31.1 300.0
C1' SG2 CB2 HB21 140.5 60.0
C1' SG2 CB2 HB22 31.1 300.0
C2' C1' SG2 C6' 114.5 121.7
C2' C1' SG2 H1' 237.3 240.9
SG2 C1' C2' N2' 84.8 79.1
SG2 C1' C2' C3' 267.4 259.1
C6' C1' SG2 H1' 122.8 119.2
SG2 C1' C6' C5' 95.0 100.9
SG2 C1' C6' N6' 269.5 280.9
C2 N3 CA3 HN3 180.0 180.0
C3 CA3 N3 HA31 234.7 239.9
C3 CA3 N3 HA32 125.3 120.0
N3 CA3 C3 O31 13.9 0.1
N3 CA3 C3 O32 191.8 180.0
HA31 CA3 N3 HA32 250.6 240.0
C2 N3 HN3 CA3 180.0 180.0
HN3 N3 CA3 C3 67.5 359.9
HN3 N3 CA3 HA31 192.8 120.0
HN3 N3 CA3 HA32 302.2 240.0
C3 CA3 N3 HN3 67.5 359.9
N3 CA3 C3 HA31 125.3 120.1
N3 CA3 C3 HA32 234.7 240.0
HA31 CA3 C3 HA32 109.4 120.0
O31 C3 CA3 O32 182.2 180.1
CA3 C3 O32 HO3 180.0 180.0
HA31 CA3 N3 HN3 192.8 120.0
N3 CA3 HA31 C3 233.7 240.0
N3 CA3 HA31 HA32 116.8 120.0
C3 CA3 HA31 HA32 243.1 240.0
HA31 CA3 C3 O31 248.6 240.0
HA31 CA3 C3 O32 66.5 60.0
HA32 CA3 N3 HN3 302.2 240.0
N3 CA3 HA32 C3 126.3 120.0
N3 CA3 HA32 HA31 243.2 240.0
C3 CA3 HA32 HA31 116.9 120.0
HA32 CA3 C3 O31 139.2 120.1
HA32 CA3 C3 O32 317.0 300.0
O31 C3 CA3 HA31 248.6 240.0
O31 C3 CA3 HA32 139.2 120.1
CA3 C3 O31 O32 177.8 179.9
O31 C3 O32 HO3 357.8 360.0
O32 C3 CA3 HA31 66.5 60.0
O32 C3 CA3 HA32 317.0 300.0
CA3 C3 O32 O31 182.2 180.1
SG2 C1' C2' C6' 248.1 239.5
SG2 C1' C2' H1' 124.8 119.2
C6' C1' C2' H1' 236.8 239.6
C2' C1' C6' C5' 343.1 340.5
C2' C1' C6' N6' 157.5 160.4
N2' C2' C1' C3' 177.4 179.9
C1' C2' N2' O21 322.3 360.0
C1' C2' N2' O22 147.1 180.0
C1' C2' C3' C4' 347.8 359.9
C1' C2' C3' H3' 167.8 180.0
SG2 C1' C6' C2' 111.9 120.5
SG2 C1' C6' H1' 235.1 240.8
C2' C1' C6' H1' 123.2 120.3
C6' C1' C2' N2' 196.8 199.5
C6' C1' C2' C3' 19.3 19.6
C4' C5' C6' C1' 8.0 0.0
C1' C6' C5' H5' 188.0 180.0
C5' C6' C1' N6' 185.5 180.0
C1' C6' N6' O61 146.9 0.0
C1' C6' N6' O62 326.7 180.0
SG2 C1' H1' C2' 240.8 240.9
SG2 C1' H1' C6' 119.2 119.2
C2' C1' H1' C6' 238.4 238.4
H1' C1' C2' N2' 320.0 319.9
H1' C1' C2' C3' 142.5 140.0
H1' C1' C6' C5' 219.9 220.1
H1' C1' C6' N6' 34.3 40.1
N2' C2' C1' C6' 196.8 199.5
N2' C2' C1' H1' 320.0 319.9
C1' C2' N2' C3' 182.3 180.1
N2' C2' C3' C4' 170.2 180.0
N2' C2' C3' H3' 350.1 0.1
O21 N2' C2' O22 175.1 180.0
C3' C2' C1' C6' 19.3 19.6
C3' C2' C1' H1' 142.5 140.0
C1' C2' C3' N2' 177.6 179.9
C3' C2' N2' O21 140.0 179.9
C3' C2' N2' O22 324.8 360.0
C4' C3' C2' H3' 180.0 179.9
C2' C3' C4' N4' 174.1 220.1
C2' C3' C4' C5' 0.1 340.5
C2' C3' C4' H4' 297.1 101.0
O21 N2' C2' C3' 140.0 179.9
C2' N2' O21 O22 185.4 180.0
O22 N2' C2' C3' 324.8 360.0
C2' N2' O22 O21 174.7 180.0
C2' C3' C4' H3' 180.0 180.1
N4' C4' C3' C5' 173.9 239.6
N4' C4' C3' H4' 237.0 119.1
C3' C4' N4' O41 15.9 61.7
C3' C4' N4' O42 193.6 241.8
C5' C4' C3' H4' 63.0 239.6
C3' C4' C5' C6' 1.8 19.5
C3' C4' C5' H5' 181.8 199.5
C2' C3' H3' C4' 180.0 179.9
H3' C3' C4' N4' 354.1 40.0
H3' C3' C4' C5' 180.2 160.4
H3' C3' C4' H4' 117.2 280.9
N4' C4' C3' H3' 354.1 40.0
C3' C4' N4' C5' 185.8 121.7
C3' C4' N4' H4' 99.5 240.9
C5' C4' N4' H4' 273.7 119.1
N4' C4' C5' C6' 187.9 140.0
N4' C4' C5' H5' 7.9 320.0
O41 N4' C4' O42 182.3 179.9
C1' C6' C5' C4' 8.0 0.0
C5' C4' C3' H3' 180.2 160.4
C3' C4' C5' N4' 173.9 239.5
C3' C4' C5' H4' 291.7 120.4
N4' C4' C5' H4' 117.9 240.9
C5' C4' N4' O41 190.1 299.9
C5' C4' N4' O42 7.8 120.0
C6' C5' C4' H5' 180.0 180.0
C4' C5' C6' N6' 194.2 180.0
H4' C4' C3' H3' 117.2 280.9
C3' C4' H4' N4' 241.9 119.2
C3' C4' H4' C5' 128.6 238.3
N4' C4' H4' C5' 246.8 119.1
H4' C4' N4' O41 276.4 180.8
H4' C4' N4' O42 94.1 0.9
H4' C4' C5' C6' 70.1 259.1
H4' C4' C5' H5' 250.0 79.1
O41 N4' C4' C5' 190.1 299.9
O41 N4' C4' H4' 276.4 180.8
C4' N4' O41 O42 177.8 180.1
O42 N4' C4' C5' 7.8 120.0
O42 N4' C4' H4' 94.1 0.9
C4' N4' O42 O41 182.3 179.9
C5' C6' C1' H1' 219.9 220.1
C1' C6' C5' N6' 173.7 180.0
C6' C5' C4' H4' 70.1 259.1
C4' C5' C6' H5' 180.0 180.0
C5' C6' N6' O61 321.3 180.0
C5' C6' N6' O62 141.1 359.9
H5' C5' C4' H4' 250.0 79.1
C4' C5' H5' C6' 180.0 180.0
H5' C5' C6' N6' 14.3 0.0
N6' C6' C1' H1' 34.3 40.1
C1' C6' N6' C5' 185.6 180.0
N6' C6' C5' H5' 14.3 0.0
O61 N6' C6' O62 180.2 180.1
C6' N6' O61 O62 179.8 179.9
C6' N6' O62 O61 180.3 180.1